[Suicide Junkie]

For another solution, but some fighters in your missile ships, make 'em all shields & engines.

The fighters will absorb 5-6 PD shots each, and your missiles will devastate the enemy ships. Then, with crippled enemies, use beams to finish em.

Or, put a long-range tractor beam on your missile ship. You pull the one enemy in, and hit 'em point blank with missiles, giving them no chance to use their PD effectively.